Algebraic and Combinatorial Computational Biology

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Publisher : Academic Press
ISBN 13 : 0128140690
Total Pages : 436 pages
Book Rating : 4.1/5 (281 download)

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Book Synopsis Algebraic and Combinatorial Computational Biology by : Raina Robeva

Download or read book Algebraic and Combinatorial Computational Biology written by Raina Robeva and published by Academic Press. This book was released on 2018-10-08 with total page 436 pages. Available in PDF, EPUB and Kindle. Book excerpt: Algebraic and Combinatorial Computational Biology introduces students and researchers to a panorama of powerful and current methods for mathematical problem-solving in modern computational biology. Presented in a modular format, each topic introduces the biological foundations of the field, covers specialized mathematical theory, and concludes by highlighting connections with ongoing research, particularly open questions. The work addresses problems from gene regulation, neuroscience, phylogenetics, molecular networks, assembly and folding of biomolecular structures, and the use of clustering methods in biology. A number of these chapters are surveys of new topics that have not been previously compiled into one unified source. These topics were selected because they highlight the use of technique from algebra and combinatorics that are becoming mainstream in the life sciences. - Integrates a comprehensive selection of tools from computational biology into educational or research programs - Emphasizes practical problem-solving through multiple exercises, projects and spinoff computational simulations - Contains scalable material for use in undergraduate and graduate-level classes and research projects - Introduces the reader to freely-available professional software - Supported by illustrative datasets and adaptable computer code

Algebraic Statistics for Computational Biology

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Publisher : Cambridge University Press
ISBN 13 : 9780521857000
Total Pages : 440 pages
Book Rating : 4.8/5 (57 download)

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Book Synopsis Algebraic Statistics for Computational Biology by : L. Pachter

Download or read book Algebraic Statistics for Computational Biology written by L. Pachter and published by Cambridge University Press. This book was released on 2005-08-22 with total page 440 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book, first published in 2005, offers an introduction to the application of algebraic statistics to computational biology.

Statistical Methods in Bioinformatics

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Publisher : Springer Science & Business Media
ISBN 13 : 0387400826
Total Pages : 616 pages
Book Rating : 4.3/5 (874 download)

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Book Synopsis Statistical Methods in Bioinformatics by : Warren J. Ewens

Download or read book Statistical Methods in Bioinformatics written by Warren J. Ewens and published by Springer Science & Business Media. This book was released on 2005-09-30 with total page 616 pages. Available in PDF, EPUB and Kindle. Book excerpt: Advances in computers and biotechnology have had a profound impact on biomedical research, and as a result complex data sets can now be generated to address extremely complex biological questions. Correspondingly, advances in the statistical methods necessary to analyze such data are following closely behind the advances in data generation methods. The statistical methods required by bioinformatics present many new and difficult problems for the research community. This book provides an introduction to some of these new methods. The main biological topics treated include sequence analysis, BLAST, microarray analysis, gene finding, and the analysis of evolutionary processes. The main statistical techniques covered include hypothesis testing and estimation, Poisson processes, Markov models and Hidden Markov models, and multiple testing methods. The second edition features new chapters on microarray analysis and on statistical inference, including a discussion of ANOVA, and discussions of the statistical theory of motifs and methods based on the hypergeometric distribution. Much material has been clarified and reorganized. The book is written so as to appeal to biologists and computer scientists who wish to know more about the statistical methods of the field, as well as to trained statisticians who wish to become involved with bioinformatics. The earlier chapters introduce the concepts of probability and statistics at an elementary level, but with an emphasis on material relevant to later chapters and often not covered in standard introductory texts. Later chapters should be immediately accessible to the trained statistician. Sufficient mathematical background consists of introductory courses in calculus and linear algebra. The basic biological concepts that are used are explained, or can be understood from the context, and standard mathematical concepts are summarized in an Appendix. Problems are provided at the end of each chapter allowing the reader to develop aspects of the theory outlined in the main text. Warren J. Ewens holds the Christopher H. Brown Distinguished Professorship at the University of Pennsylvania. He is the author of two books, Population Genetics and Mathematical Population Genetics. He is a senior editor of Annals of Human Genetics and has served on the editorial boards of Theoretical Population Biology, GENETICS, Proceedings of the Royal Society B and SIAM Journal in Mathematical Biology. He is a fellow of the Royal Society and the Australian Academy of Science. Gregory R. Grant is a senior bioinformatics researcher in the University of Pennsylvania Computational Biology and Informatics Laboratory. He obtained his Ph.D. in number theory from the University of Maryland in 1995 and his Masters in Computer Science from the University of Pennsylvania in 1999. Comments on the first edition: "This book would be an ideal text for a postgraduate course...[and] is equally well suited to individual study.... I would recommend the book highly." (Biometrics) "Ewens and Grant have given us a very welcome introduction to what is behind those pretty [graphical user] interfaces." (Naturwissenschaften) "The authors do an excellent job of presenting the essence of the material without getting bogged down in mathematical details." (Journal American Statistical Association) "The authors have restructured classical material to a great extent and the new organization of the different topics is one of the outstanding services of the book." (Metrika)

Computational Discrete Mathematics

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Publisher : Cambridge University Press
ISBN 13 : 1107268710
Total Pages : 615 pages
Book Rating : 4.1/5 (72 download)

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Book Synopsis Computational Discrete Mathematics by : Sriram Pemmaraju

Download or read book Computational Discrete Mathematics written by Sriram Pemmaraju and published by Cambridge University Press. This book was released on 2009-10-15 with total page 615 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book was first published in 2003. Combinatorica, an extension to the popular computer algebra system Mathematica®, is the most comprehensive software available for teaching and research applications of discrete mathematics, particularly combinatorics and graph theory. This book is the definitive reference/user's guide to Combinatorica, with examples of all 450 Combinatorica functions in action, along with the associated mathematical and algorithmic theory. The authors cover classical and advanced topics on the most important combinatorial objects: permutations, subsets, partitions, and Young tableaux, as well as all important areas of graph theory: graph construction operations, invariants, embeddings, and algorithmic graph theory. In addition to being a research tool, Combinatorica makes discrete mathematics accessible in new and exciting ways to a wide variety of people, by encouraging computational experimentation and visualization. The book contains no formal proofs, but enough discussion to understand and appreciate all the algorithms and theorems it contains.

Analytic Combinatorics

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Publisher : Cambridge University Press
ISBN 13 : 1139477161
Total Pages : 825 pages
Book Rating : 4.1/5 (394 download)

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Book Synopsis Analytic Combinatorics by : Philippe Flajolet

Download or read book Analytic Combinatorics written by Philippe Flajolet and published by Cambridge University Press. This book was released on 2009-01-15 with total page 825 pages. Available in PDF, EPUB and Kindle. Book excerpt: Analytic combinatorics aims to enable precise quantitative predictions of the properties of large combinatorial structures. The theory has emerged over recent decades as essential both for the analysis of algorithms and for the study of scientific models in many disciplines, including probability theory, statistical physics, computational biology, and information theory. With a careful combination of symbolic enumeration methods and complex analysis, drawing heavily on generating functions, results of sweeping generality emerge that can be applied in particular to fundamental structures such as permutations, sequences, strings, walks, paths, trees, graphs and maps. This account is the definitive treatment of the topic. The authors give full coverage of the underlying mathematics and a thorough treatment of both classical and modern applications of the theory. The text is complemented with exercises, examples, appendices and notes to aid understanding. The book can be used for an advanced undergraduate or a graduate course, or for self-study.

Algebraic and Discrete Mathematical Methods for Modern Biology

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Publisher : Academic Press
ISBN 13 : 0128012714
Total Pages : 383 pages
Book Rating : 4.1/5 (28 download)

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Book Synopsis Algebraic and Discrete Mathematical Methods for Modern Biology by : Raina Robeva

Download or read book Algebraic and Discrete Mathematical Methods for Modern Biology written by Raina Robeva and published by Academic Press. This book was released on 2015-05-09 with total page 383 pages. Available in PDF, EPUB and Kindle. Book excerpt: Written by experts in both mathematics and biology, Algebraic and Discrete Mathematical Methods for Modern Biology offers a bridge between math and biology, providing a framework for simulating, analyzing, predicting, and modulating the behavior of complex biological systems. Each chapter begins with a question from modern biology, followed by the description of certain mathematical methods and theory appropriate in the search of answers. Every topic provides a fast-track pathway through the problem by presenting the biological foundation, covering the relevant mathematical theory, and highlighting connections between them. Many of the projects and exercises embedded in each chapter utilize specialized software, providing students with much-needed familiarity and experience with computing applications, critical components of the "modern biology" skill set. This book is appropriate for mathematics courses such as finite mathematics, discrete structures, linear algebra, abstract/modern algebra, graph theory, probability, bioinformatics, statistics, biostatistics, and modeling, as well as for biology courses such as genetics, cell and molecular biology, biochemistry, ecology, and evolution. - Examines significant questions in modern biology and their mathematical treatments - Presents important mathematical concepts and tools in the context of essential biology - Features material of interest to students in both mathematics and biology - Presents chapters in modular format so coverage need not follow the Table of Contents - Introduces projects appropriate for undergraduate research - Utilizes freely accessible software for visualization, simulation, and analysis in modern biology - Requires no calculus as a prerequisite - Provides a complete Solutions Manual - Features a companion website with supplementary resources

Applied Combinatorics on Words

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Publisher : Cambridge University Press
ISBN 13 : 9780521848022
Total Pages : 646 pages
Book Rating : 4.8/5 (48 download)

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Book Synopsis Applied Combinatorics on Words by : M. Lothaire

Download or read book Applied Combinatorics on Words written by M. Lothaire and published by Cambridge University Press. This book was released on 2005-07-11 with total page 646 pages. Available in PDF, EPUB and Kindle. Book excerpt: Publisher Description

Patterns in Permutations and Words

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Publisher : Springer Science & Business Media
ISBN 13 : 3642173330
Total Pages : 511 pages
Book Rating : 4.6/5 (421 download)

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Book Synopsis Patterns in Permutations and Words by : Sergey Kitaev

Download or read book Patterns in Permutations and Words written by Sergey Kitaev and published by Springer Science & Business Media. This book was released on 2011-08-30 with total page 511 pages. Available in PDF, EPUB and Kindle. Book excerpt: There has been considerable interest recently in the subject of patterns in permutations and words, a new branch of combinatorics with its roots in the works of Rotem, Rogers, and Knuth in the 1970s. Consideration of the patterns in question has been extremely interesting from the combinatorial point of view, and it has proved to be a useful language in a variety of seemingly unrelated problems, including the theory of Kazhdan—Lusztig polynomials, singularities of Schubert varieties, interval orders, Chebyshev polynomials, models in statistical mechanics, and various sorting algorithms, including sorting stacks and sortable permutations. The author collects the main results in the field in this up-to-date, comprehensive reference volume. He highlights significant achievements in the area, and points to research directions and open problems. The book will be of interest to researchers and graduate students in theoretical computer science and mathematics, in particular those working in algebraic combinatorics and combinatorics on words. It will also be of interest to specialists in other branches of mathematics, theoretical physics, and computational biology. The author collects the main results in the field in this up-to-date, comprehensive reference volume. He highlights significant achievements in the area, and points to research directions and open problems. The book will be of interest to researchers and graduate students in theoretical computer science and mathematics, in particular those working in algebraic combinatorics and combinatorics on words. It will also be of interest to specialists in other branches of mathematics, theoretical physics, and computational biology.

Combinatorics of Genome Rearrangements

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Publisher : MIT Press
ISBN 13 : 0262062828
Total Pages : 305 pages
Book Rating : 4.2/5 (62 download)

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Book Synopsis Combinatorics of Genome Rearrangements by : Guillaume Fertin

Download or read book Combinatorics of Genome Rearrangements written by Guillaume Fertin and published by MIT Press. This book was released on 2009 with total page 305 pages. Available in PDF, EPUB and Kindle. Book excerpt: A comprehensive survey of a rapidly expanding field of combinatorial optimization, mathematically oriented but offering biological explanations when required. From one cell to another, from one individual to another, and from one species to another, the content of DNA molecules is often similar. The organization of these molecules, however, differs dramatically, and the mutations that affect this organization are known as genome rearrangements. Combinatorial methods are used to reconstruct putative rearrangement scenarios in order to explain the evolutionary history of a set of species, often formalizing the evolutionary events that can explain the multiple combinations of observed genomes as combinatorial optimization problems. This book offers the first comprehensive survey of this rapidly expanding application of combinatorial optimization. It can be used as a reference for experienced researchers or as an introductory text for a broader audience. Genome rearrangement problems have proved so interesting from a combinatorial point of view that the field now belongs as much to mathematics as to biology. This book takes a mathematically oriented approach, but provides biological background when necessary. It presents a series of models, beginning with the simplest (which is progressively extended by dropping restrictions), each constructing a genome rearrangement problem. The book also discusses an important generalization of the basic problem known as the median problem, surveys attempts to reconstruct the relationships between genomes with phylogenetic trees, and offers a collection of summaries and appendixes with useful additional information.

Mathematical Tools for Data Mining

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Publisher : Springer Science & Business Media
ISBN 13 : 1848002017
Total Pages : 611 pages
Book Rating : 4.8/5 (48 download)

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Book Synopsis Mathematical Tools for Data Mining by : Dan A. Simovici

Download or read book Mathematical Tools for Data Mining written by Dan A. Simovici and published by Springer Science & Business Media. This book was released on 2008-08-15 with total page 611 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume was born from the experience of the authors as researchers and educators,whichsuggeststhatmanystudentsofdataminingarehandicapped in their research by the lack of a formal, systematic education in its mat- matics. The data mining literature contains many excellent titles that address the needs of users with a variety of interests ranging from decision making to p- tern investigation in biological data. However, these books do not deal with the mathematical tools that are currently needed by data mining researchers and doctoral students. We felt it timely to produce a book that integrates the mathematics of data mining with its applications. We emphasize that this book is about mathematical tools for data mining and not about data mining itself; despite this, a substantial amount of applications of mathematical c- cepts in data mining are presented. The book is intended as a reference for the working data miner. In our opinion, three areas of mathematics are vital for data mining: set theory,includingpartially orderedsetsandcombinatorics;linear algebra,with its many applications in principal component analysis and neural networks; and probability theory, which plays a foundational role in statistics, machine learning and data mining. Thisvolumeisdedicatedtothestudyofset-theoreticalfoundationsofdata mining. Two further volumes are contemplated that will cover linear algebra and probability theory. The ?rst part of this book, dedicated to set theory, begins with a study of functionsandrelations.Applicationsofthesefundamentalconceptstosuch- sues as equivalences and partitions are discussed. Also, we prepare the ground for the following volumes by discussing indicator functions, ?elds and?-?elds, and other concepts.

Mathematical Methods in Biology

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Publisher : John Wiley & Sons
ISBN 13 : 0470525878
Total Pages : 437 pages
Book Rating : 4.4/5 (75 download)

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Book Synopsis Mathematical Methods in Biology by : J. David Logan

Download or read book Mathematical Methods in Biology written by J. David Logan and published by John Wiley & Sons. This book was released on 2009-08-17 with total page 437 pages. Available in PDF, EPUB and Kindle. Book excerpt: A one-of-a-kind guide to using deterministic and probabilistic methods for solving problems in the biological sciences Highlighting the growing relevance of quantitative techniques in scientific research, Mathematical Methods in Biology provides an accessible presentation of the broad range of important mathematical methods for solving problems in the biological sciences. The book reveals the growing connections between mathematics and biology through clear explanations and specific, interesting problems from areas such as population dynamics, foraging theory, and life history theory. The authors begin with an introduction and review of mathematical tools that are employed in subsequent chapters, including biological modeling, calculus, differential equations, dimensionless variables, and descriptive statistics. The following chapters examine standard discrete and continuous models using matrix algebra as well as difference and differential equations. Finally, the book outlines probability, statistics, and stochastic methods as well as material on bootstrapping and stochastic differential equations, which is a unique approach that is not offered in other literature on the topic. In order to demonstrate the application of mathematical methods to the biological sciences, the authors provide focused examples from the field of theoretical ecology, which serve as an accessible context for study while also demonstrating mathematical skills that are applicable to many other areas in the life sciences. The book's algorithms are illustrated using MATLAB®, but can also be replicated using other software packages, including R, Mathematica®, and Maple; however, the text does not require any single computer algebra package. Each chapter contains numerous exercises and problems that range in difficulty, from the basic to more challenging, to assist readers with building their problem-solving skills. Selected solutions are included at the back of the book, and a related Web site features supplemental material for further study. Extensively class-tested to ensure an easy-to-follow format, Mathematical Methods in Biology is an excellent book for mathematics and biology courses at the upper-undergraduate and graduate levels. It also serves as a valuable reference for researchers and professionals working in the fields of biology, ecology, and biomathematics.

Connections Between Algebra, Combinatorics, and Geometry

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Publisher : Springer
ISBN 13 : 1493906267
Total Pages : 328 pages
Book Rating : 4.4/5 (939 download)

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Book Synopsis Connections Between Algebra, Combinatorics, and Geometry by : Susan M. Cooper

Download or read book Connections Between Algebra, Combinatorics, and Geometry written by Susan M. Cooper and published by Springer. This book was released on 2014-05-16 with total page 328 pages. Available in PDF, EPUB and Kindle. Book excerpt: Commutative algebra, combinatorics, and algebraic geometry are thriving areas of mathematical research with a rich history of interaction. Connections Between Algebra and Geometry contains lecture notes, along with exercises and solutions, from the Workshop on Connections Between Algebra and Geometry held at the University of Regina from May 29-June 1, 2012. It also contains research and survey papers from academics invited to participate in the companion Special Session on Interactions Between Algebraic Geometry and Commutative Algebra, which was part of the CMS Summer Meeting at the University of Regina held June 2–3, 2012, and the meeting Further Connections Between Algebra and Geometry, which was held at the North Dakota State University February 23, 2013. This volume highlights three mini-courses in the areas of commutative algebra and algebraic geometry: differential graded commutative algebra, secant varieties, and fat points and symbolic powers. It will serve as a useful resource for graduate students and researchers who wish to expand their knowledge of commutative algebra, algebraic geometry, combinatorics, and the intricacies of their intersection.

Mathematics and Computation

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Publisher : Princeton University Press
ISBN 13 : 0691189137
Total Pages : 434 pages
Book Rating : 4.6/5 (911 download)

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Book Synopsis Mathematics and Computation by : Avi Wigderson

Download or read book Mathematics and Computation written by Avi Wigderson and published by Princeton University Press. This book was released on 2019-10-29 with total page 434 pages. Available in PDF, EPUB and Kindle. Book excerpt: From the winner of the Turing Award and the Abel Prize, an introduction to computational complexity theory, its connections and interactions with mathematics, and its central role in the natural and social sciences, technology, and philosophy Mathematics and Computation provides a broad, conceptual overview of computational complexity theory—the mathematical study of efficient computation. With important practical applications to computer science and industry, computational complexity theory has evolved into a highly interdisciplinary field, with strong links to most mathematical areas and to a growing number of scientific endeavors. Avi Wigderson takes a sweeping survey of complexity theory, emphasizing the field’s insights and challenges. He explains the ideas and motivations leading to key models, notions, and results. In particular, he looks at algorithms and complexity, computations and proofs, randomness and interaction, quantum and arithmetic computation, and cryptography and learning, all as parts of a cohesive whole with numerous cross-influences. Wigderson illustrates the immense breadth of the field, its beauty and richness, and its diverse and growing interactions with other areas of mathematics. He ends with a comprehensive look at the theory of computation, its methodology and aspirations, and the unique and fundamental ways in which it has shaped and will further shape science, technology, and society. For further reading, an extensive bibliography is provided for all topics covered. Mathematics and Computation is useful for undergraduate and graduate students in mathematics, computer science, and related fields, as well as researchers and teachers in these fields. Many parts require little background, and serve as an invitation to newcomers seeking an introduction to the theory of computation. Comprehensive coverage of computational complexity theory, and beyond High-level, intuitive exposition, which brings conceptual clarity to this central and dynamic scientific discipline Historical accounts of the evolution and motivations of central concepts and models A broad view of the theory of computation's influence on science, technology, and society Extensive bibliography

Handbook of Finite Fields

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Publisher : CRC Press
ISBN 13 : 1439873828
Total Pages : 1048 pages
Book Rating : 4.4/5 (398 download)

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Book Synopsis Handbook of Finite Fields by : Gary L. Mullen

Download or read book Handbook of Finite Fields written by Gary L. Mullen and published by CRC Press. This book was released on 2013-06-17 with total page 1048 pages. Available in PDF, EPUB and Kindle. Book excerpt: Poised to become the leading reference in the field, the Handbook of Finite Fields is exclusively devoted to the theory and applications of finite fields. More than 80 international contributors compile state-of-the-art research in this definitive handbook. Edited by two renowned researchers, the book uses a uniform style and format throughout and

Combinatorial Algebraic Topology

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Publisher : Springer Science & Business Media
ISBN 13 : 9783540730514
Total Pages : 416 pages
Book Rating : 4.7/5 (35 download)

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Book Synopsis Combinatorial Algebraic Topology by : Dimitry Kozlov

Download or read book Combinatorial Algebraic Topology written by Dimitry Kozlov and published by Springer Science & Business Media. This book was released on 2008-01-08 with total page 416 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume is the first comprehensive treatment of combinatorial algebraic topology in book form. The first part of the book constitutes a swift walk through the main tools of algebraic topology. Readers - graduate students and working mathematicians alike - will probably find particularly useful the second part, which contains an in-depth discussion of the major research techniques of combinatorial algebraic topology. Although applications are sprinkled throughout the second part, they are principal focus of the third part, which is entirely devoted to developing the topological structure theory for graph homomorphisms.

Algorithmic Algebra

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Publisher : Springer Science & Business Media
ISBN 13 : 1461243440
Total Pages : 427 pages
Book Rating : 4.4/5 (612 download)

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Book Synopsis Algorithmic Algebra by : Bhubaneswar Mishra

Download or read book Algorithmic Algebra written by Bhubaneswar Mishra and published by Springer Science & Business Media. This book was released on 2012-12-06 with total page 427 pages. Available in PDF, EPUB and Kindle. Book excerpt: Algorithmic Algebra studies some of the main algorithmic tools of computer algebra, covering such topics as Gröbner bases, characteristic sets, resultants and semialgebraic sets. The main purpose of the book is to acquaint advanced undergraduate and graduate students in computer science, engineering and mathematics with the algorithmic ideas in computer algebra so that they could do research in computational algebra or understand the algorithms underlying many popular symbolic computational systems: Mathematica, Maple or Axiom, for instance. Also, researchers in robotics, solid modeling, computational geometry and automated theorem proving community may find it useful as symbolic algebraic techniques have begun to play an important role in these areas. The book, while being self-contained, is written at an advanced level and deals with the subject at an appropriate depth. The book is accessible to computer science students with no previous algebraic training. Some mathematical readers, on the other hand, may find it interesting to see how algorithmic constructions have been used to provide fresh proofs for some classical theorems. The book also contains a large number of exercises with solutions to selected exercises, thus making it ideal as a textbook or for self-study.

MATHEMATICAL COMBINATORICS (INTERNATIONAL BOOK SERIES)

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Author :
Publisher : Infinite Study
ISBN 13 :
Total Pages : 135 pages
Book Rating : 4./5 ( download)

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Book Synopsis MATHEMATICAL COMBINATORICS (INTERNATIONAL BOOK SERIES) by : Linfan MAO

Download or read book MATHEMATICAL COMBINATORICS (INTERNATIONAL BOOK SERIES) written by Linfan MAO and published by Infinite Study. This book was released on 2013 with total page 135 pages. Available in PDF, EPUB and Kindle. Book excerpt: The mathematical combinatorics is a subject that applying combinatorial notion to all mathematics and all sciences for understanding the reality of things in the universe, motivated by CC Conjecture of Dr.Linfan MAO on mathematical sciences. TheMathematical Combinatorics (International Book Series) is a fully refereed international book series with an ISBN number on each issue, sponsored by the MADIS of Chinese Academy of Sciences and published in USA quarterly, which publishes original research papers and survey articles in all aspects of mathematical combinatorics, Smarandachemulti-spaces, Smarandache geometries, non-Euclidean geometry, topology and their applications to other sciences.